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CellWalkR: An R Package for integrating single-cell and bulk data to resolve regulatory elements

By Pawel F. Przytycki, Katherine Pollard

Posted 24 Feb 2021
bioRxiv DOI: 10.1101/2021.02.23.432593

While single-cell open chromatin (scATAC-seq) data allows for the identification of cell type-specific regulatory regions, it is much sparser than bulk data. CellWalkR is an R package that performs an integration of external labeling and bulk epigenetic data with scATAC-seq using a network-based random walk model to help overcome this sparsity. Outputs include cell type labels for individual cells and regulatory regions. Availability and implementationCellWalkR is freely available as an R package under a GNU GPL-2.0 License, and can be accessed from https://github.com/PFPrzytycki/CellWalkR with an accompanying vignette for analyzing example data.

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